X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 298.0
Details 0.1 M Bis-Tris pH 6.5, 25% PEG 3350, 0.2M Ammonium Acetate, Vapor diffusion, Sitting drop, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 40.56 α = 90
b = 100.86 β = 90
c = 119.63 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2009-08-14
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A 0.9793 NSLS X29A

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
2 50 100.0 0.102 0.146 -- 11.6 34052 34052 -- -- --
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
2.0 2.07 100.0 0.9 0.82 2.6 11.7 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
SAD 2.0 50.0 -- 0.0 -- 33986 1723 99.81 -- 0.213 0.21 0.266 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 2.0 2.052 -- 127 2287 0.252 0.267 -- 97.57
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 32.555
Anisotropic B[1][1] -0.65
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.9
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.25
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.016
r_scbond_it 2.571
r_dihedral_angle_4_deg 17.017
r_mcangle_it 1.785
r_dihedral_angle_2_deg 33.305
r_chiral_restr 0.103
r_angle_refined_deg 1.491
r_dihedral_angle_1_deg 6.324
r_dihedral_angle_3_deg 16.542
r_gen_planes_refined 0.008
r_scangle_it 4.32
r_mcbond_it 0.974
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3820
Nucleic Acid Atoms 0
Heterogen Atoms 38
Solvent Atoms 136

Software

Software
Software Name Purpose
REFMAC refinement
PDB_EXTRACT data extraction version: 3.005
CBASS data collection
HKL-2000 data reduction
HKL-2000 data scaling
PHENIX phasing